top of page
mmu_ciNckap5l_578
Basic information of circular RNA
PanCircBase ID:
mmu_ciNckap5l_578
mm39_Chr. Position ID:
chr15|99330747|99331325|-
Gene name:
Nckap5l
Transcript:
ENSMUST00000023747.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
578
Exon/intron sizes in nt:
578
Flanking exon/introns:
chr15:99330705-99331325
Splice length:
578
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTGGATTCAGGACTGTCTCACACCCACCTAACTGCTGCAGGATAGACCCAGGGTATACACAGGAGGTACAGCCCTGGGACTCCAGAGACCTGCTCAACTAAGTCTCTACCACCACGGAGTAGCCTAGGAGGAGCTCCCTATTGGCCCACTTGGCCCATGCCACTACCTCTGATTGGCCCGTTATTCTCTACCAGGAAGCAGAGTGAGTTGTTAAGGCCAGGTCTCTGAACCATGGGAACTTTGATTTGGACTAGAATGCCTTCTCTTACCTGGAGCCCAGCTGATTTCTCTATCGCCTTCAAAACACTACCAACGTCATGAGCCTCTATGGCCTTGAAGTGTTTTCTTCAGATCGCTGTGATGCGGGCCACTTAGACGTCAGGGTTCTCCCACGCCTTAGATGCCCCTCCCTTTTGACATGGCTTCTAGGAGGGAGGAAGCCAGCTGCAGAAATGGTGGAAATGACAGACTGGCCTTTACCGTAGTTCATTAGGGTAGCAAACCTTGAGAGCTCATCCCCAGAGGCTGTAGGTGTGAGCACAGCTGGCGGGGGCGGGAAGTCGCTGTCCCTCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTTGAGAGCTCATCCCCA
60.25
AGGGCTGTACCTCCTGTGTA
59.59
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAGGCTGTAGGTGTGAGC
60.11
TGAGCAGGTCTCTGGAGTCC
60.61
155
PCR template sequence:
CTTTACCGTAGTTCATTAGGGTAGCAAACCTTGAGAGCTCATCCCCAGAGGCTGTAGGTGTGAGCACAGCTGGCGGGGGCGGGAAGTCGCTGTCCCTCTCGTGAGTGGATTCAGGACTGTCTCACACCCACCTAACTGCTGCAGGATAGACCCAGGGTATACACAGGAGGTACAGCCCTGGGACTCCAGAGACCTGCTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-196a-5p(1), mmu-let-7d-5p(1), mmu-miR-680(1), mmu-miR-207(1), mmu-miR-539-5p(1), mmu-miR-3087-3p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CGCTGTCCCTCTCGTGAGTGGATTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.585080767
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page